docs: persistence and config changes become one operator page
The operator parts of the persistence and config-changes pages merge into agents/persistence.md. The sqlite tables, state dirs, mounts and migrations move to 4-implementation/agent-state/persistence.md, and the deploy path, meta flake, deploy markers, startup migrations, root container, system messages and autoupdate move to 4-implementation/agent-state/config-changes.md. Links, code comments and nix comments that named the old sections point at the new pages.
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//! that line directly; see the module doc on [`emit_crash_transitions`].
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//! Login-state transitions (`needs_login`/`logged_in`) publish onto
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//! `swarm_notices` instead. The `RECENT_TRANSIENT_GRACE` window:
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//! `docs/2-handbook/agents/config-changes.md::System messages`.
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//! `docs/4-implementation/agent-state/config-changes.md::System messages`.
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use std::collections::HashSet;
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use std::sync::Arc;
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